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Arsenic in PDB 2im0: Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+

Enzymatic activity of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+

All present enzymatic activity of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+:
2.7.7.48;

Protein crystallography data

The structure of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+, PDB code: 2im0 was solved by A.A.Thompson, O.B.Peersen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.80 / 2.25
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 127.695, 127.695, 113.034, 90.00, 90.00, 120.00
R / Rfree (%) 23.7 / 26

Other elements in 2im0:

The structure of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+ also contains other interesting chemical elements:

Sodium (Na) 1 atom

Arsenic Binding Sites:

The binding sites of Arsenic atom in the Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+ (pdb code 2im0). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 4 binding sites of Arsenic where determined in the Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+, PDB code: 2im0:
Jump to Arsenic binding site number: 1; 2; 3; 4;

Arsenic binding site 1 out of 4 in 2im0

Go back to Arsenic Binding Sites List in 2im0
Arsenic binding site 1 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As96

b:97.5
occ:1.00
 AS A:CAS96 0.0 97.5 1.0
CE2 A:CAS96 2.2 94.8 1.0
CE1 A:CAS96 2.2 95.7 1.0
SG A:CAS96 2.3 91.2 1.0
CB A:CAS96 3.1 83.8 1.0
OD2 A:ASP99 4.0 72.5 1.0
CG A:ASP99 4.6 71.9 1.0
CA A:CAS96 4.6 80.2 1.0
CB A:GLU98 4.6 77.2 1.0

Arsenic binding site 2 out of 4 in 2im0

Go back to Arsenic Binding Sites List in 2im0
Arsenic binding site 2 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As212

b:73.4
occ:1.00
 AS A:CAS212 0.0 73.4 1.0
CE2 A:CAS212 2.2 58.9 1.0
CE1 A:CAS212 2.2 63.7 1.0
SG A:CAS212 2.3 42.1 1.0
CB A:CAS212 3.3 39.0 1.0
CD1 A:LEU374 3.4 38.6 1.0
O A:ALA209 3.4 28.2 1.0
O A:CAS212 3.5 30.1 1.0
C A:CAS212 3.8 29.4 1.0
CA A:CAS212 3.8 31.4 1.0
N A:CAS212 3.9 31.0 1.0
CG A:PRO214 4.1 23.5 1.0
CD A:PRO214 4.2 24.3 1.0
CE2 A:TYR326 4.2 39.5 1.0
CD2 A:TYR326 4.3 37.6 1.0
C A:ALA209 4.5 29.4 1.0
CG A:LEU374 4.6 37.9 1.0
CD2 A:LEU374 4.6 36.2 1.0
N A:ASP213 4.7 28.1 1.0
CB A:ALA209 4.7 26.5 1.0
N A:PRO214 4.9 24.2 1.0

Arsenic binding site 3 out of 4 in 2im0

Go back to Arsenic Binding Sites List in 2im0
Arsenic binding site 3 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 3 of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As281

b:56.7
occ:1.00
 AS A:CAS281 0.0 56.7 1.0
CE2 A:CAS281 2.2 51.7 1.0
CE1 A:CAS281 2.2 51.2 1.0
SG A:CAS281 2.3 50.2 1.0
CB A:CAS281 3.2 47.5 1.0
CA A:CAS281 3.8 46.4 1.0
O A:SER271 3.9 41.2 1.0
CA A:HIS272 4.1 44.4 1.0
C A:SER271 4.1 42.1 1.0
CZ2 A:TRP5 4.2 35.0 1.0
CB A:HIS272 4.2 43.8 1.0
N A:HIS272 4.2 43.5 1.0
CG A:HIS272 4.6 43.9 1.0
C A:CAS281 4.8 43.2 1.0
CE2 A:TRP5 4.8 33.4 1.0
CD2 A:HIS272 4.8 43.4 1.0
CH2 A:TRP5 4.8 37.3 1.0
N A:VAL282 4.9 41.1 1.0
N A:CAS281 4.9 46.7 1.0
NE1 A:TRP5 5.0 33.1 1.0

Arsenic binding site 4 out of 4 in 2im0

Go back to Arsenic Binding Sites List in 2im0
Arsenic binding site 4 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 4 of Crystal Structure of Poliovirus Polymerase Complexed with Ctp and MG2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As290

b:75.7
occ:1.00
 AS A:CAS290 0.0 75.7 1.0
CE2 A:CAS290 2.2 68.9 1.0
CE1 A:CAS290 2.3 69.9 1.0
SG A:CAS290 2.3 62.0 1.0
CB A:CAS290 3.2 54.6 1.0
SD A:MET187 3.4 55.0 1.0
CD2 A:LEU268 3.6 34.3 1.0
CB A:SER179 4.0 49.6 1.0
CA A:CAS290 4.2 50.0 1.0
OG A:SER179 4.5 50.2 1.0
CG A:LEU268 4.5 36.0 1.0
CE A:MET187 4.6 54.1 1.0
CD2 A:LEU154 4.7 44.2 1.0
N A:SER291 4.8 48.6 1.0
CG A:MET187 4.8 50.4 1.0
CD2 A:TYR267 4.8 61.3 1.0
CB A:ASP183 4.9 53.8 1.0

Reference:

A.A.Thompson, R.A.Albertini, O.B.Peersen. Stabilization of Poliovirus Polymerase By Ntp Binding and Fingers-Thumb Interactions. J.Mol.Biol. V. 366 1459 2007.
ISSN: ISSN 0022-2836
PubMed: 17223130
DOI: 10.1016/J.JMB.2006.11.070
Page generated: Sat Dec 12 01:38:13 2020

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